Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.7.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8139	0.31
27DAP/17DAP	1.03909	1
39DAP/27DAP	1.49793	0.128
41DAP/39DAP	0.78218	0.245
42DAP/41DAP	1.23893	0.685
43DAP/42DAP	1.19857	0.864
47DAP/43DAP	0.92621	0.736
52DAP/47DAP	0.87513	0.637
57DAP/52DAP	1.05129	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05665	0.46
17DAP/reference	0.89477	0.18
27DAP/reference	0.98284	0.694
39DAP/reference	0.9634	0.587
41DAP/reference	0.90441	0.267
42DAP/reference	1.06364	0.174
43DAP/reference	1.02164	0.705
47DAP/reference	1.16087	0.081
52DAP/reference	1.19608	0.108
57DAP/reference	1.13128	0.015

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0291	1
27DAP/17DAP	1.0047	1
39DAP/27DAP	0.92416	0.502
41DAP/39DAP	1.10097	0.883
42DAP/41DAP	1.1865	0.663
43DAP/42DAP	1.01113	0.83
47DAP/43DAP	1.11647	0.25
52DAP/47DAP	0.9505	0.848
57DAP/52DAP	1.09291	0.547
57DAP/7DAP	0.78162	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.101	0.576
17DAP/reference	1.08078	0.18
27DAP/reference	1.0598	0.664
39DAP/reference	1.10698	0.157
41DAP/reference	1.06434	0.539
42DAP/reference	1.05987	0.889
43DAP/reference	0.8771	0.059
47DAP/reference	1.29721	0.062
52DAP/reference	0.78381	0.031
57DAP/reference	0.92867	0.137

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07308	0.531
17DAP/reference	0.8756	0.006
27DAP/reference	1.0533	0.757
39DAP/reference	0.87828	0.165
41DAP/reference	0.926	0.177
42DAP/reference	0.98991	0.655
43DAP/reference	1.01645	0.787
47DAP/reference	0.969	0.284
52DAP/reference	0.82023	0.008
57DAP/reference	0.84494	0.008

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26835	0.056
17DAP/reference	1.08423	0.689
27DAP/reference	1.14907	0.188
39DAP/reference	1.20975	0.125
41DAP/reference	1.05568	0.383
42DAP/reference	1.18802	0.127
43DAP/reference	1.01518	1
47DAP/reference	0.96044	0.383
52DAP/reference	0.92668	0.493
57DAP/reference	1.59803	0.011

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09678	0.966
26DAP/20DAP	1.16983	0.442
34DAP/26DAP	1.24707	0.542
51DAP/34DAP	1.1861	0.565
52DAP/51DAP	1.39208	0.446
53DAP/52DAP	1.03967	0.921
55DAP/53DAP	1.23211
57DAP/55DAP	1.01762	0.968
62DAP/57DAP	0.82328	0.28
68DAP/62DAP	1.2284	0.5
68DAP/14DAP	N/A	N/A

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.11914	0.347

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.71321	0.192
Mature Green Tomato/Ripe Tomato	0.82304	0.256
Immature Eggplant/Mature Eggplant	1.88985	0.05
Ripe Pepper/Ripe Tomato	0.74034	0.293
Mature Eggplant/Ripe Tomato	0.69659	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.06365	0.591
1-1-2/M82	1.006	1
12-2/M82	0.91861	0.955
12-4/M82	0.96927	0.282
1-3/M82	1.21821	0.26
2-1-1/M82	0.93469	0.683
2-1/M82	1.17151	1
2-6/M82	0.91762	1
3-2/M82	1.03496
4-1-1/M82	0.86319	1
4-1/M82	1.26968	1
4-3-2/M82	1.14083	1
4-3/M82	0.92709	1
5-3/M82	0.98815	1
6-2/M82	0.95052	1
6-3/M82	0.99105	1
7-1/M82	0.94902	0.452
7-2/M82	0.99706	1
9-3-2/M82	1.2563

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.55008	0.321
IL2-6/WTpooled	1.02866	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.85424	0.418
IL12-4/WTpooled	0.81589	0.71
IL1-4/WTpooled	0.80218	0.834
WT/WTpooled	0.98335

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	1.24637	0.139

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0871	0.914
DC3000/delta hrp 6h	1.02821	1
DC3000/delta hrp 12h	0.92219	1
DC3000/delta hrp 24h	1.01772	0.779

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.92848	0.341
DC3000 delta B/DC3000 delta AB	1.21172	0.164

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.08434	0.254
Exp 36h	1.3397	0.489
Exp 60h	1.61207	0.221

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	0.98768	1
Var 0h	0.62119	0.421
Var 12h I row2-row1	1.02987	0.795
Var 12h NI row2-row1	1.01174	1
Var 36h I row2-row1	1.20338	0.304
Var 36h NI row2-row1	1.07239	1
Var 60h I row2-row1	0.89661	0.582
Var 60h NI row2-row1	0.87389	0.359
Time course 0hI-0hNI	0.94465	0.475
Time course 12hI-12hNI	0.97176	0.815
Time course 36hI-36hNI	1.16176	0.016
Time course 60hI-60hNI	1.84111	0.008

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	0.9863	0.862
transgenic ySAMdc/azygous control (breaker)	1.05167	1
transgenic ySAMdc/azygous control (red)	1.09872	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98871	0.737

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.82095	0.238

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.01148	1
Manapal/WT (break)	1.09832	0.126
Manapal/WT (red)	0.97664	0.728